Publications

Inflammatory genital strain of Chlamydia trachomatis elicits a Th17 immune response

Lebron Figueroa A, Magill I, Zemmour D, Starnbach MN

J Immunol. 2026 Jun 7. 215(6)PMID 42413199

Epidermal resident memory T cell fitness requires antigen encounter in the skin

Weiss ES, Hirai T, Li H, Liu A, Baker S, Magill I, Gillis J, Zhang YR, Ramcke T, Kurihara K … Zemmour D … Kaplan DH (4 more authors)

Elife. 2025 Dec 30. 14PMID 41468295

Genomic specificity of anti-mouse TCR mAbs determined by single-cell RNAseq

Magill I, Piekarsa V, Kossida S, Croteau J, Lee A, Balderas R, Zemmour D, Benoist C

J Immunol. 2025 Sep 1. 214(9). 2202-2210PMID 40751448

Histopathologic Evaluation and Single-cell Spatial Transcriptomics of the Colon Reveal Cellular and Molecular Abnormalities Linked to J-Pouch Failure in Patients With Inflammatory Bowel Disease

Olivas AD^*, Mou Ngai PC^*, Schahrer E, Xing J, Ghadiri M, Olortegui KS, Cursio JF, Akiyama S, Chang EB, Shen L … Zemmour D^{^}, Weber CR^{^} (2 more authors)

Cell Mol Gastroenterol Hepatol. 2025. 19(10). 101563PMID 40571096

Mutational signature analysis of chronic lymphocytic leukemia uncovering genomic patterns and prognostic implications

AlJabban A, Azevedo RS, Antel K, Arnette A, Cohen EF, Meredith DM, Murakami MA, Sholl LM, Tolstorukov MY, Tsai HK … Zemmour D … Kim AS (4 more authors)

Am J Clin Pathol. 2025 Oct 4. 164(4). 530-544PMID 40814292

Unconventional CD8(+) T cell surveillance of cytomegalovirus via Qa-1/HLA-E-restricted epitope recognition

Reilly SP, Smith ML, Borys SM, Fugère C, Demers D, Hogan MJ, Zemmour D, Brossay L

Sci Adv. 2025 Dec 19. 11(51). eaea8707PMID 41417899

Cutaneous Manifestations of Myeloid Neoplasms Exhibit Broad and Divergent Morphologic and Immunophenotypic Features but Share Ancestral Clonal Mutations With Bone Marrow

Sadigh S, DeAngelo DJ, Garcia JS, Hasserjian RP, Hergott CB, Lane AA, Lovitch SB, Lucas F, Luskin MR, Morgan EA … Zemmour D, Kim AS (6 more authors)

Mod Pathol. 2024 Jan. 37(1). 100352PMID 37839675

NK cells restrain cytotoxic CD8(+) T cells in the submandibular gland via PD-1-PD-L1

Borys SM, Reilly SP, Magill I, Zemmour D, Brossay L

Sci Immunol. 2024 Dec 20. 9(102). eadl2967PMID 39705335

Shared Clonal Origin of Multiple Histiocytic and Dendritic Neoplasms and Polycythemia Vera, Follicular Lymphoma in 1 Patient

Larocca C, Shanmugam V, Zemmour D, Antin JH, Lane AA

Am J Dermatopathol. 2022 Dec 1. 44(12). 929-932PMID 35642960

The ImmGen consortium OpenSource T cell project

Zemmour D, Goldrath A, Kronenberg M, Kang J, Benoist C

Nat Immunol. 2022 May. 23(5). 643-644PMID 35469020

A Literature-Derived Knowledge Graph Augments the Interpretation of Single Cell RNA-seq Datasets

Doddahonnaiah D, Lenehan PJ, Hughes TK, Zemmour D, Garcia-Rivera E, Venkatakrishnan AJ, Chilaka R, Khare A, Kasaraneni A, Garg A … Soundararajan V (3 more authors)

Genes (Basel). 2021 Jun 10. 12(6)PMID 34200671

Analysis of the Effectiveness of the Ad26.COV2.S Adenoviral Vector Vaccine for Preventing COVID-19

Corchado-Garcia J^*, Zemmour D^*, Hughes T, Bandi H, Cristea-Platon T, Lenehan P, Pawlowski C, Bade S, O'Horo JC, Gores GJ … Soundararajan V (6 more authors)

JAMA Netw Open. 2021 Nov 1. 4(11). e2132540PMID 34726743

Autophagy-mitophagy induction attenuates cardiovascular inflammation in a murine model of Kawasaki disease vasculitis

Marek-Iannucci S, Ozdemir AB, Moreira D, Gomez AC, Lane M, Porritt RA, Lee Y, Shimada K, Abe M, Stotland A, Zemmour D … Arditi M (8 more authors)

JCI Insight. 2021 Sep 22. 6(18)PMID 34403365

Mapping each pre-existing condition's association to short-term and long-term COVID-19 complications

Venkatakrishnan AJ, Pawlowski C, Zemmour D, Hughes T, Anand A, Berner G, Kayal N, Puranik A, Conrad I, Bade S … Soundararajan V (5 more authors)

NPJ Digit Med. 2021 Jul 27. 4(1). 117PMID 34315980

NLRP3 Inflammasome Mediates Immune-Stromal Interactions in Vasculitis

Porritt RA^*, Zemmour D^*, Abe M^*, Lee Y, Narayanan M, Carvalho TT, Gomez AC, Martinon D, Santiskulvong C, Fishbein MC … Noval Rivas M (4 more authors)

Circ Res. 2021 Oct 15. 129(9). e183-e200PMID 34517723

Single-cell analysis of FOXP3 deficiencies in humans and mice unmasks intrinsic and extrinsic CD4(+) T cell perturbations

Zemmour D, Charbonnier LM, Leon J, Six E, Keles S, Delville M, Benamar M, Baris S, Zuber J, Chen K … Benoist C (10 more authors)

Nat Immunol. 2021 May. 22(5). 607-619PMID 33833438

CD4(+) teff cell heterogeneity: the perspective from single-cell transcriptomics

Zemmour D, Kiner E, Benoist C

Curr Opin Immunol. 2020 Apr. 63. 61-67PMID 32259715

Knowledge synthesis of 100 million biomedical documents augments the deep expression profiling of coronavirus receptors

Venkatakrishnan AJ, Puranik A, Anand A, Zemmour D, Yao X, Wu X, Chilaka R, Murakowski DK, Standish K, Raghunathan B … Soundararajan V (7 more authors)

Elife. 2020 May 28. 9PMID 32463365

Neuronal, stromal, and T-regulatory cell crosstalk in murine skeletal muscle

Wang K, Yaghi OK, Spallanzani RG, Chen X, Zemmour D, Lai N, Chiu IM, Benoist C, Mathis D

Proc Natl Acad Sci U S A. 2020 Mar 10. 117(10). 5402-5408PMID 32102913

Distinct immunocyte-promoting and adipocyte-generating stromal components coordinate adipose tissue immune and metabolic tenors

Spallanzani RG, Zemmour D, Xiao T, Jayewickreme T, Li C, Bryce PJ, Benoist C, Mathis D

Sci Immunol. 2019 May 3. 4(35)PMID 31053654

Single-Cell Transcriptomics of Human and Mouse Lung Cancers Reveals Conserved Myeloid Populations across Individuals and Species

Zilionis R, Engblom C, Pfirschke C, Savova V, Zemmour D, Saatcioglu HD, Krishnan I, Maroni G, Meyerovitz CV, Kerwin CM … Klein AM (7 more authors)

Immunity. 2019 May 21. 50(5). 1317-1334.e10PMID 30979687

Molecular diversification of regulatory T cells in nonlymphoid tissues

DiSpirito JR^*, Zemmour D^*, Ramanan D, Cho J, Zilionis R, Klein AM, Benoist C, Mathis D

Sci Immunol. 2018 Sep 14. 3(27)PMID 30217811

Single-cell gene expression reveals a landscape of regulatory T cell phenotypes shaped by the TCR

Zemmour D, Zilionis R, Kiner E, Klein AM, Mathis D, Benoist C

Nat Immunol. 2018 Mar. 19(3). 291-301PMID 29434354

TCR Transgenic Mice Reveal Stepwise, Multi-site Acquisition of the Distinctive Fat-Treg Phenotype

Li C, DiSpirito JR, Zemmour D, Spallanzani RG, Kuswanto W, Benoist C, Mathis D

Cell. 2018 Jul 12. 174(2). 285-299.e12PMID 29887374

Flicr, a long noncoding RNA, modulates Foxp3 expression and autoimmunity

Zemmour D, Pratama A, Loughhead SM, Mathis D, Benoist C

Proc Natl Acad Sci U S A. 2017 Apr 25. 114(17). E3472-E3480PMID 28396406

Osteoblasts remotely supply lung tumors with cancer-promoting SiglecF(high) neutrophils

Engblom C, Pfirschke C, Zilionis R, Da Silva Martins J, Bos SA, Courties G, Rickelt S, Severe N, Baryawno N, Faget J … Zemmour D … Pittet MJ (21 more authors)

Science. 2017 Dec 1. 358(6367)PMID 29191879

Single-cell barcoding and sequencing using droplet microfluidics

Zilionis R, Nainys J, Veres A, Savova V, Zemmour D, Klein AM, Mazutis L

Nat Protoc. 2017 Jan. 12(1). 44-73PMID 27929523

Aire controls gene expression in the thymic epithelium with ordered stochasticity

Meredith M, Zemmour D, Mathis D, Benoist C

Nat Immunol. 2015 Sep. 16(9). 942-9PMID 26237550

MUCOSAL IMMUNOLOGY. Individual intestinal symbionts induce a distinct population of RORγ⁺ regulatory T cells

Sefik E, Geva-Zatorsky N, Oh S, Konnikova L, Zemmour D, McGuire AM, Burzyn D, Ortiz-Lopez A, Lobera M, Yang J … Benoist C (6 more authors)

Science. 2015 Aug 28. 349(6251). 993-7PMID 26272906

Conservation and divergence in the transcriptional programs of the human and mouse immune systems

Shay T, Jojic V, Zuk O, Rothamel K, Puyraimond-Zemmour D, Feng T, Wakamatsu E, Benoist C, Koller D, Regev A

Proc Natl Acad Sci U S A. 2013 Feb 19. 110(8). 2946-51PMID 23382184

Double-stranded RNA adenosine deaminase ADAR-1-induced hypermutated genomes among inactivated seasonal influenza and live attenuated measles virus vaccines

Suspène R, Petit V, Puyraimond-Zemmour D, Aynaud MM, Henry M, Guétard D, Rusniok C, Wain-Hobson S, Vartanian JP

J Virol. 2011 Mar. 85(5). 2458-62PMID 21159878

Inversing the natural hydrogen bonding rule to selectively amplify GC-rich ADAR-edited RNAs

Suspène R, Renard M, Henry M, Guétard D, Puyraimond-Zemmour D, Billecocq A, Bouloy M, Tangy F, Vartanian JP, Wain-Hobson S

Nucleic Acids Res. 2008 Jul. 36(12). e72PMID 18515351